TarDB: A miRNA Target Database in Plants.


TarDB employs cross-species conservation filter, degradome and sRNA-seq data to identify high-confidence miRNA targets in plants.



miRNA ID

mtr-miR2111m-3p

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

GUCCUCGGGAUACAGAUUACU

miRBase

Precursor miRNA Sequence(5'-3')

UUAAUUGGUUAAGGAUAGGGUAAUCUGCAUCCUGAGGUUUAGAGCAACAUUUGUGUUGUAUCUAGUCCUCGGGAUACAGAUUACUUUUUUCUUAAUACCAAUGUGAA

miRBase

Precursor miRNA Structure(5'-3') 

--UUA      --      U           C         U     -      U 
     AUUGGU  UAAGGA AGGGUAAUCUG AUCCUGAGG UUAGA GCAACA U
     ||||||  |||||| ||||||||||| ||||||||| ||||| ||||||  
     UAACCA  AUUCUU UUUCAUUAGAC UAGGGCUCC GAUCU UGUUGU U
AAGUG      UA      U           A         U     A      G

Homologous Mature miRNAs   miRNAs are clustered by CD-HIT with sequence identity of >85% and word size of 5.

mtr-miR2111m-3p      GUCCUCGGGAUACAGAUUACU
cru-miR2111          -UCCUCGGGAUACAGAUUACC
gma-miR2111a         GUCCUUGGGAUGCAGAUUACG
gma-miR2111d         GUCCUUGGGAUGCAGAUUACG
vvi-miR2111-3p       GUCCUCUGGUUGCAGAUUACU
                      ****  ** * ********